This module accepts either a **complete** (not just significant!) peak list or a **complete** peak intensity table.

**Peak List (version 1):** The *Function Analysis* module accepts either one of the three formats below:

- A three column table containing the
**m/z**features,**p-values**, and**statistical scores**; - A two-column table containing
**m/z**features and either**p-values**or**t-scores**; - A one-column table ranked by either
**p-values**or**t-scores**.

All inputted files must be in .txt format. If the input is a three column table, both the mummichog and GSEA algorithms (and their combination) can be applied. If only p-values (or ranked by p-values) are provided, then only the mummichog algorithm will be applied. If only t-scores (or ranked by t-scores) are provided, then only the GSEA algorithm will be applied.

**Peak List (version 2):** With Version 2 of mummichog in *Functional Analysis* module, retention time can be included as a new column with the “rt” or “r.t” heading. The maximum number of columns that can be uploaded is 5: “**m.z**”, “**r.t**”, “**p.value**”, “**t.score**” and “**mode**”.

**Peak Intensity Table**: This table should contain sample class labels and feature IDs with mass and/or retention times. See examples below: